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CRISPR Screen Sequencing Data Analysis

CRISPR Screen Sequencing Data Analysis

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CD Genomics, as one of the most competitive service providers in sequencing and data analysis, we use CRISPR technologies and advanced bioinformatics to help you explore the genetic information and decipher the essence of life. Our skills and experience in data analysis can meet customers' personalized data analysis needs.

Introduction of CRISPR Screen Sequencing Data Analysis

CRISPR screen sequencing involves the use of CRISPR-Cas9 to screen mutant cell populations for genes involved in specific phenotypes. The process begins with the design and construction of a CRISPR library, which consists of a series of guide RNAs (gRNAs) for different target genes. These gRNAs are then introduced into the cell or organism and the CRISPR-Cas9 system is used to induce targeted gene modifications. With advances in high-throughput sequencing technology, large-scale CRISPR screens generate large amounts of sequencing data that require complex computational analysis. With its potential applications in various fields such as drug discovery, disease research and precision medicine, CRISPR screen sequencing data analysis has become an integral part of genomic research.

Fig. 1. Different phenotypes for CRISPR screens and data analysis.Fig. 1. Different phenotypes for CRISPR screens and data analysis. (Zhao Y, et al, 2022)

The Bioinformatics Analysis That We Can Provide

Our lab has high-throughput sequencing technologies, such as next-generation sequencing (NGS), to identify and quantify genetic changes induced by the CRISPR-Cas9 system, which is widely used for CRISPR screen sequencing. In addition, we offer a variety of computational tools and pipelines to analyze CRISPR screen sequencing data, helping our clients study gene function and behavior in a highly targeted and efficient manner.

At CD Genomics, we understand the critical role of CRISPR screen sequencing data analysis in revealing valuable insights into genetic function. As experts in the field, we offer comprehensive services for CRISPR screen sequencing data analysis, tailored to meet the unique needs of biologists and researchers.

Our analysis of CRISPR screen sequencing data involves several key steps. First, the raw sequencing data is processed and quality assessed to ensure reliable results. The reads are then aligned to a reference sgRNA library and the abundance of the sgRNA sequences is quantified. Various normalization techniques are used to account for experimental variation and to enable accurate comparisons between samples.

Next, statistical algorithms and bioinformatics tools are used to identify significant hits on the screen. These hits represent genes that may be functionally related to the observed phenotype. The analysis takes into account factors such as ploidy variation in sgRNA abundance, controls, and multiple testing corrections to minimize false discoveries. By utilizing advanced computational techniques, our researchers can identify new candidate genes with a high degree of confidence.

Our Advantages:

Allow analysis of three types of CRISPR screen sequencing data, including CRISPR/Cas9 knockout (CRISPRko) screen, CRISPR/dCas9 activation (CRISPRa) screen, and CRISPR/dCas9 interference (CRISPRi) screen.

State-of-the-art analysis methods are used to ensure accurate and reliable analysis of your CRISPR screen sequencing data.

Ability to identify significant target genes associated with the observed phenotype.

Use powerful statistical algorithms and rigorous validation procedures to identify the most important hits on the screen, minimizing the importance of false positives and false negatives.

Bioinformatics Analysis Content:

Analysis/Pipeline Details
Validation of CRISPR Libraries We work closely with researchers to identify target genes of interest and design gRNAs that effectively target these genes. We ensure the construction of high-quality CRISPR libraries that enable precise and targeted gene modifications.
Identification of Essential Genes By examining the abundance of different gRNAs targeting specific genes, statistical methods can be used to determine the importance of gene depletion or enrichment. This information helps to identify genes that are essential for cell survival, proliferation, or response to external stimuli.
Pathway Analysis By pooling the results of multiple gene perturbations, we can infer the functional relationships between genes and identify signaling pathways or biological processes that are significantly affected.
Validation and Follow-up Experiments We allow validation of the results obtained from CRISPR screening sequencing data analysis and provide insight into the biological processes being studied.

How It Works

CD Genomics is a high-tech company specializing in multiomic data analysis. We provide services such as project design, data analysis, and database construction. With a focus on developing breakthrough products and services, we are a pioneer in the biotechnology industry, serving researchers and partners worldwide.

How It Works

CD Genomics has over a decade of experience in sequencing and analysis. We can help you with your project from experimental data, through all analyses to intact report at competitive rates. If you have any questions about how we can help you, please contact us. We look forward to working with you!

Reference

  1. Zhao Y, Zhang M, Yang D. Bioinformatics approaches to analyzing CRISPR screen data: from dropout screens to single-cell CRISPR screens. Quant Biol. 2022 Dec;10(4):307-320.
* For Research Use Only. Not for use in diagnostic procedures.
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